Normalized, centered, segmented and called.
Normalized, centered, segmented and called.
Any value (including gene symbols) can be queried in the ‘Search’ box. To search for an exact symbol try adding a coma (,) at the end of your query. Case is insensitive.
Any value can be queried in the ‘Search’ box. Case is insensitive.
Any value can be queried in the ‘Search’ box. Case is insensitive.
Blank cells correspond to genomic regions for which BAF is non-determined (no covering probe, thus no BAF segment).
Found 37 truncated gene(s).
Normalized, centered, segmented and called.
## R version 4.1.2 (2021-11-01)
## Platform: x86_64-w64-mingw32/x64 (64-bit)
## Running under: Windows 10 x64 (build 17763)
##
## Matrix products: default
##
## locale:
## [1] LC_COLLATE=French_France.1252 LC_CTYPE=French_France.1252 LC_MONETARY=French_France.1252 LC_NUMERIC=C LC_TIME=French_France.1252
##
## attached base packages:
## [1] parallel stats4 splines stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] BSgenome.Hsapiens.UCSC.hg19_1.4.3 apt.oncoscan.2.4.0_0.1.6 sequenza_3.0.0 seqinr_4.2-8
## [5] rhdf5_2.38.0 R.utils_2.11.0 R.oo_1.24.0 R.methodsS3_1.8.1
## [9] mclust_5.4.9 iotools_0.3-2 DT_0.21 dplyr_1.0.8
## [13] changepoint_2.2.2 zoo_1.8-9 BSgenome_1.62.0 rtracklayer_1.54.0
## [17] Biostrings_2.62.0 XVector_0.34.0 aroma.light_3.24.0 affxparser_1.66.0
## [21] ASCAT_3.0.0 doParallel_1.0.17 iterators_1.0.14 foreach_1.5.2
## [25] GenomicRanges_1.46.1 GenomeInfoDb_1.30.1 IRanges_2.28.0 S4Vectors_0.32.3
## [29] data.table_1.14.2 RColorBrewer_1.1-2 EaCoN_0.3.6-2 CGHbase_1.54.0
## [33] marray_1.72.0 limma_3.50.1 Biobase_2.54.0 BiocGenerics_0.40.0
##
## loaded via a namespace (and not attached):
## [1] bitops_1.0-7 matrixStats_0.61.0 bslib_0.3.1 tools_4.1.2 utf8_1.2.2
## [6] R6_2.5.1 DBI_1.1.2 rhdf5filters_1.6.0 ade4_1.7-18 tidyselect_1.1.2
## [11] compiler_4.1.2 cli_3.1.1 DelayedArray_0.20.0 sass_0.4.0 readr_2.1.2
## [16] pbapply_1.5-0 stringr_1.4.0 digest_0.6.29 Rsamtools_2.10.0 rmarkdown_2.12
## [21] pkgconfig_2.0.3 htmltools_0.5.2 MatrixGenerics_1.6.0 fastmap_1.1.0 htmlwidgets_1.5.4
## [26] rlang_1.0.1 rstudioapi_0.13 jquerylib_0.1.4 BiocIO_1.4.0 generics_0.1.2
## [31] jsonlite_1.8.0 crosstalk_1.2.0 BiocParallel_1.28.3 RCurl_1.98-1.6 magrittr_2.0.2
## [36] GenomeInfoDbData_1.2.7 Matrix_1.4-0 Rhdf5lib_1.16.0 fansi_1.0.2 lifecycle_1.0.1
## [41] stringi_1.7.6 yaml_2.3.5 oncoscanR_0.1.1 MASS_7.3-55 SummarizedExperiment_1.24.0
## [46] zlibbioc_1.40.0 grid_4.1.2 crayon_1.5.0 lattice_0.20-45 hms_1.1.1
## [51] seqminer_8.4 knitr_1.37 pillar_1.7.0 rjson_0.2.21 codetools_0.2-18
## [56] XML_3.99-0.9 glue_1.6.1 evaluate_0.15 squash_1.0.9 copynumber_1.34.0
## [61] vctrs_0.3.8 tzdb_0.2.0 purrr_0.3.4 assertthat_0.2.1 xfun_0.30
## [66] restfulr_0.0.13 tibble_3.1.6 GenomicAlignments_1.30.0 ellipsis_0.3.2